lpNet

Linear Programming Model for Network Inference

Bioconductor version: Release (3.17)

lpNet aims at infering biological networks, in particular signaling and gene networks. For that it takes perturbation data, either steady-state or time-series, as input and generates an LP model which allows the inference of signaling networks. For parameter identification either leave-one-out cross-validation or stratified n-fold cross-validation can be used.

Author: Bettina Knapp, Marta R. A. Matos, Johanna Mazur, Lars Kaderali

Maintainer: Lars Kaderali <lars.kaderali at uni-greifswald.de>

Citation (from within R, enter citation("lpNet")):

Installation

To install this package, start R (version "4.3") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("lpNet")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("lpNet")

lpNet, network inference with a linear optimization program.	PDF	R Script
Reference Manual	PDF
NEWS	Text

Details

biocViews	NetworkInference, Software
Version	2.32.0
In Bioconductor since	BioC 2.12 (R-3.0) (10.5 years)
License	Artistic License 2.0
Depends	lpSolve
Imports
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	lpNet_2.32.0.tar.gz
Windows Binary	lpNet_2.32.0.zip
macOS Binary (x86_64)	lpNet_2.32.0.tgz
macOS Binary (arm64)	lpNet_2.32.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/lpNet
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/lpNet
Bioc Package Browser	https://code.bioconductor.org/browse/lpNet/
Package Short Url	https://bioconductor.org/packages/lpNet/
Package Downloads Report	Download Stats